Slc4a4 (solute carrier family 4 member 4) - Rat Genome Database

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Gene: Slc4a4 (solute carrier family 4 member 4) Chinchilla lanigera
Analyze
Symbol: Slc4a4
Name: solute carrier family 4 member 4
RGD ID: 8803140
Description: ENCODES a protein that exhibits identical protein binding (ortholog); sodium:bicarbonate symporter activity (ortholog); symporter activity (ortholog); INVOLVED IN bicarbonate transport (ortholog); establishment of localization in cell (ortholog); metanephric proximal tubule development (ortholog); ASSOCIATED WITH Animal Disease Models (ortholog); cataract (ortholog); cholangiocarcinoma (ortholog); FOUND IN basolateral plasma membrane (ortholog); cell surface (ortholog); membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: electrogenic sodium bicarbonate cotransporter 1; solute carrier family 4 (sodium bicarbonate cotransporter), member 4
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554471,599,929 - 1,900,791 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554471,599,986 - 1,900,791 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Slc4a4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554471,599,929 - 1,900,791 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554471,599,986 - 1,900,791 (-)NCBIChiLan1.0ChiLan1.0
SLC4A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38471,062,660 - 71,572,083 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl471,062,667 - 71,572,087 (+)EnsemblGRCh38hg38GRCh38
GRCh37472,052,482 - 72,437,800 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36472,271,867 - 72,656,663 (+)NCBINCBI36Build 36hg18NCBI36
Build 34472,569,851 - 72,802,834NCBI
Celera469,409,858 - 69,794,385 (+)NCBICelera
Cytogenetic Map4q13.3NCBI
HuRef467,858,038 - 68,243,033 (+)NCBIHuRef
CHM1_1472,088,838 - 72,473,646 (+)NCBICHM1_1
T2T-CHM13v2.0474,404,936 - 74,914,352 (+)NCBIT2T-CHM13v2.0
Slc4a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39588,941,717 - 89,387,515 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl589,034,345 - 89,387,512 (+)EnsemblGRCm39 Ensembl
GRCm38588,793,858 - 89,239,656 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl588,886,486 - 89,239,653 (+)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl588,886,818 - 89,239,653 (+)EnsemblGRCm38mm10GRCm38
MGSCv37589,316,285 - 89,668,681 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36590,009,308 - 90,310,099 (+)NCBIMGSCv36mm8
Celera587,083,219 - 87,378,244 (+)NCBICelera
Cytogenetic Map5E1NCBI
cM Map544.1NCBI
Slc4a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81419,125,394 - 19,577,379 (-)NCBIGRCr8
mRatBN7.21418,841,289 - 19,293,297 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1418,845,159 - 19,272,883 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1418,835,659 - 19,168,521 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01420,154,535 - 20,487,378 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01418,866,264 - 19,200,389 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01420,476,258 - 20,817,042 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1420,479,323 - 20,920,286 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01420,382,241 - 20,803,426 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41420,381,545 - 20,739,216 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11420,381,544 - 20,739,216 (-)NCBI
Celera1418,198,665 - 18,528,992 (-)NCBICelera
Cytogenetic Map14p22NCBI
SLC4A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2358,518,761 - 58,902,521 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1458,714,895 - 59,097,574 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0452,659,221 - 52,994,053 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1459,002,200 - 59,337,558 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl459,002,200 - 59,385,608 (-)Ensemblpanpan1.1panPan2
SLC4A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11360,375,215 - 60,670,664 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1360,328,136 - 60,666,728 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1360,062,119 - 60,404,847 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01361,134,685 - 61,478,360 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1361,054,824 - 61,475,687 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11360,748,991 - 61,092,136 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01360,240,742 - 60,583,813 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01361,388,701 - 61,732,082 (+)NCBIUU_Cfam_GSD_1.0
Slc4a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528514,940,952 - 15,261,596 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365983,391,575 - 3,713,635 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365983,391,587 - 3,713,629 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC4A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl867,706,874 - 68,177,212 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1867,768,955 - 68,177,213 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2871,840,687 - 72,050,150 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC4A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1719,581,399 - 20,043,334 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660842,813,860 - 3,204,408 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc4a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248902,523,327 - 2,919,148 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248902,523,368 - 2,940,081 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000011613   ⟹   ENSCLAP00000011476
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554471,599,929 - 1,900,791 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000011614   ⟹   ENSCLAP00000011477
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554471,599,929 - 1,885,582 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000011615   ⟹   ENSCLAP00000011478
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554471,789,331 - 1,800,211 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000011616   ⟹   ENSCLAP00000011479
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554471,867,175 - 1,885,294 (-)Ensembl
RefSeq Acc Id: XM_005392771   ⟹   XP_005392828
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554471,599,986 - 1,888,816 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005392772   ⟹   XP_005392829
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554471,599,986 - 1,885,544 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005392773   ⟹   XP_005392830
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554471,604,126 - 1,900,790 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013518567   ⟹   XP_013374021
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554471,599,986 - 1,900,791 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_005392828   ⟸   XM_005392771
- Peptide Label: isoform X1
- UniProtKB: A0A8C2V8X9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005392829   ⟸   XM_005392772
- Peptide Label: isoform X1
- UniProtKB: A0A8C2V8X9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005392830   ⟸   XM_005392773
- Peptide Label: isoform X2
- UniProtKB: A0A8C2VB80 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013374021   ⟸   XM_013518567
- Peptide Label: isoform X1
- UniProtKB: A0A8C2V8X9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000011477   ⟸   ENSCLAT00000011614
RefSeq Acc Id: ENSCLAP00000011476   ⟸   ENSCLAT00000011613
RefSeq Acc Id: ENSCLAP00000011479   ⟸   ENSCLAT00000011616
RefSeq Acc Id: ENSCLAP00000011478   ⟸   ENSCLAT00000011615
Protein Domains
Band 3 cytoplasmic   Bicarbonate transporter-like transmembrane


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000007914 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000011613 ENTREZGENE
  ENSCLAT00000011613.1 UniProtKB/TrEMBL
  ENSCLAT00000011614 ENTREZGENE
  ENSCLAT00000011614.1 UniProtKB/TrEMBL
  ENSCLAT00000011615.1 UniProtKB/TrEMBL
  ENSCLAT00000011616.1 UniProtKB/TrEMBL
Gene3D-CATH Helical hairpin bin UniProtKB/TrEMBL
InterPro Band3_cytoplasmic_dom UniProtKB/TrEMBL
  HCO3_transpt-like_TM_dom UniProtKB/TrEMBL
  HCO3_transpt_euk UniProtKB/TrEMBL
  Na/HCO3_transpt UniProtKB/TrEMBL
  PTrfase/Anion_transptr UniProtKB/TrEMBL
NCBI Gene Slc4a4 ENTREZGENE
PANTHER ELECTROGENIC SODIUM BICARBONATE COTRANSPORTER 1 UniProtKB/TrEMBL
  PTHR11453 UniProtKB/TrEMBL
Pfam Band_3_cyto UniProtKB/TrEMBL
  HCO3_cotransp UniProtKB/TrEMBL
PRINTS HCO3TRNSPORT UniProtKB/TrEMBL
  NAHCO3TRSPRT UniProtKB/TrEMBL
Superfamily-SCOP SSF55804 UniProtKB/TrEMBL
UniProt A0A8C2V8X9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2V9V5_CHILA UniProtKB/TrEMBL
  A0A8C2VB80 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2VDT6_CHILA UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Slc4a4  solute carrier family 4 member 4    solute carrier family 4 (sodium bicarbonate cotransporter), member 4  Symbol and/or name change 5135510 APPROVED